Package: methrix
Title: Fast and efficient summarization of generic bedGraph files from
        Bisufite sequencing
Version: 1.23.0
Authors@R: c(
  person("Anand","Mayakonda", role = c("aut", "cre"), email = "anand_mt@hotmail.com", comment = c(ORCID = "0000-0003-1162-687X")),
  person("Reka","Toth", role = "aut", email = "r.toth@dkfz.de", comment = c(ORCID = "0000-0002-6096-1052")),
  person("Rajbir","Batra", role = "ctb"), person("Clarissa","Feuerstein-Akgöz", role = "ctb"),
  person("Joschka","Hey", role = "ctb"),
  person("Maximilian","Schönung", role = "ctb"),
  person("Pavlo","Lutsik", role = "ctb"))
Description: Bedgraph files generated by Bisulfite pipelines often come in various flavors. Critical downstream step requires summarization of these files into methylation/coverage matrices. This step of data aggregation is done by Methrix, including many other useful downstream functions.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
Depends: R (>= 3.6), data.table (>= 1.12.4), SummarizedExperiment
Imports: rtracklayer, DelayedArray, HDF5Array, BSgenome,
        DelayedMatrixStats, parallel, methods, ggplot2, S4Vectors,
        matrixStats, graphics, stats, utils, GenomicRanges, IRanges
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown, DSS, bsseq, plotly,
        BSgenome.Mmusculus.UCSC.mm9, MafDb.1Kgenomes.phase3.GRCh38,
        MafDb.1Kgenomes.phase3.hs37d5, BSgenome.Hsapiens.UCSC.hg19,
        GenomicScores, Biostrings, RColorBrewer, GenomeInfoDb, testthat
        (>= 2.1.0)
VignetteBuilder: knitr
biocViews: DNAMethylation, Sequencing, Coverage
URL: https://github.com/CompEpigen/methrix
BugReports: https://github.com/CompEpigen/methrix/issues
git_url: https://git.bioconductor.org/packages/methrix
git_branch: devel
git_last_commit: 2f82b2b
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 00:20:15 UTC; biocbuild
Author: Anand Mayakonda [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-1162-687X>),
  Reka Toth [aut] (ORCID: <https://orcid.org/0000-0002-6096-1052>),
  Rajbir Batra [ctb],
  Clarissa Feuerstein-Akgöz [ctb],
  Joschka Hey [ctb],
  Maximilian Schönung [ctb],
  Pavlo Lutsik [ctb]
Maintainer: Anand Mayakonda <anand_mt@hotmail.com>
Built: R 4.5.0; ; 2025-06-05 13:22:48 UTC; windows
